SMTL ID : 7mu5.1 (1 other biounit)

Human DCTPP1 bound to Triptolide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: E.43, E.46, E.75, D.78 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.43, A:E.46, A:E.75, A:D.78, H2O.2 MG.4: 5 residues within 4Å: Chain A: K.101 Chain B: E.43, E.46, E.75, D.78 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.43, B:E.46, B:E.75, B:E.75, B:D.78 MG.6: 4 residues within 4Å: Chain C: E.43, E.46, E.75, D.78 6 PLIP interactions: 4 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:E.43, C:E.46, C:E.75, C:D.78, H2O.5, H2O.5 MG.7: 5 residues within 4Å: Chain C: K.101 Chain D: E.43, E.46, E.75, D.78 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:E.43, D:E.43, D:D.78

4 x TLI: triptolide(Non-covalent)

TLI.2: 6 residues within 4Å: Chain A: W.53 Chain C: W.27, F.30, H.31, Y.82 Chain D: Y.109 8 PLIP interactions: 6 interactions with chain C, 2 interactions with chain A Hydrophobic interactions: C:W.27, C:W.27, C:W.27, C:F.30, A:W.53, A:W.53 Hydrogen bonds: C:Y.82 Salt bridges: C:H.31 TLI.3: 7 residues within 4Å: Chain A: F.21, W.27, F.30, H.31, Y.82 Chain B: Y.109 Chain C: W.53 9 PLIP interactions: 7 interactions with chain A, 2 interactions with chain C Hydrophobic interactions: A:W.27, A:W.27, A:W.27, A:F.30, C:W.53, C:W.53 Hydrogen bonds: A:Y.82 Water bridges: A:H.31 Salt bridges: A:H.31 TLI.5: 7 residues within 4Å: Chain A: Y.109 Chain B: W.27, F.30, H.31, Y.82 Chain D: W.53, K.54 10 PLIP interactions: 3 interactions with chain D, 7 interactions with chain B Hydrophobic interactions: D:W.53, D:W.53, D:W.53, B:W.27, B:W.27, B:W.27, B:F.30, B:F.30 Hydrogen bonds: B:Y.82 Salt bridges: B:H.31 TLI.8: 7 residues within 4Å: Chain B: W.53 Chain C: Y.109 Chain D: H.18, W.27, F.30, H.31, Y.82 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain D Hydrophobic interactions: B:W.53, B:W.53, D:W.27, D:W.27, D:W.27, D:F.30 Salt bridges: D:H.31

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, J. et al., Triptolide sensitizes cancer cells to nucleoside DNA methyltransferase inhibitors through inhibition of DCTPP1 mediated cell-intrinsic resistance. To Be Published

Release Date

2022-08-24

Peptides

dCTP pyrophosphatase 1: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
E

D
G

dCTP pyrophosphatase 1

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